Tnnc1 (troponin C1, slow skeletal and cardiac type) - Rat Genome Database

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Gene: Tnnc1 (troponin C1, slow skeletal and cardiac type) Rattus norvegicus
Analyze
Symbol: Tnnc1
Name: troponin C1, slow skeletal and cardiac type
RGD ID: 1309921
Description: Enables calcium ion binding activity. Involved in cardiac muscle contraction; diaphragm contraction; and response to metal ion. Located in contractile muscle fiber. Human ortholog(s) of this gene implicated in dilated cardiomyopathy 1Z; hypertrophic cardiomyopathy; and hypertrophic cardiomyopathy 13. Orthologous to human TNNC1 (troponin C1, slow skeletal and cardiac type); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC290561; Tncc; troponin C type 1 (slow); troponin C, cardiac/slow skeletal; troponin C, slow skeletal and cardiac muscles
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,408,607 - 6,412,070 (+)NCBIGRCr8
mRatBN7.2166,400,801 - 6,405,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,402,171 - 6,405,634 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,414,415 - 6,417,445 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,559,640 - 7,562,670 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,421,423 - 6,424,453 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,292,207 - 7,295,238 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,292,096 - 7,295,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,220,777 - 7,223,730 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,639,357 - 6,642,331 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,639,312 - 6,642,502 (+)NCBI
Celera168,783,769 - 8,786,737 (-)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amphetamine  (EXP)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
cantharidin  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
choline  (ISO)
cobalt atom  (ISO)
cycloheximide  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
Echimidine  (EXP)
endosulfan  (EXP)
entinostat  (ISO)
epoxiconazole  (ISO)
esketamine  (ISO)
ethanol  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
Heliotrine  (EXP)
indole-3-methanol  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lithium chloride  (ISO)
manganese(II) chloride  (EXP)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
senecionine  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
thalidomide  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triclosan  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
triticonazole  (EXP)
trovafloxacin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway   (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bisoprolol pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway   (ISO)
calcium/calcium-mediated signaling pathway  (IEA,ISO)
carvedilol pharmacodynamics pathway  (ISO)
dilated cardiomyopathy pathway  (IEA)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
hypertrophic cardiomyopathy pathway  (IEA)
ibutilide pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Intrinsic cytosolic calcium buffering properties of single rat cardiac myocytes. Berlin JR, etal., Biophys J. 1994 Oct;67(4):1775-87.
2. Kinetic studies of calcium binding to the regulatory site of troponin C from cardiac muscle. Dong W, etal., J Biol Chem. 1996 Jan 12;271(2):688-94.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. First mutation in cardiac troponin C, L29Q, in a patient with hypertrophic cardiomyopathy. Hoffmann B, etal., Hum Mutat. 2001 Jun;17(6):524.
5. Troponin C isoform composition determines differences in Sr(2+)-activation characteristics between rat diaphragm fibers. O'Connell B, etal., Am J Physiol Cell Physiol. 2004 Jul;287(1):C79-87. Epub 2004 Feb 25.
6. A single-fibre study of the relationship between MHC and TnC isoform composition in rat skeletal muscle. O'Connell B, etal., Biochem J. 2004 Feb 15;378(Pt 1):269-74.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Mechanism of action of endothelin in rat cardiac muscle: cross-bridge kinetics and myosin light chain phosphorylation. Rossmanith GH, etal., J Physiol. 1997 Nov 15;505 ( Pt 1):217-27.
14. Calcium, troponin, calmodulin, S100 proteins: from myocardial basics to new therapeutic strategies. Schaub MC and Heizmann CW, Biochem Biophys Res Commun. 2008 Apr 25;369(1):247-64. Epub 2007 Oct 25.
Additional References at PubMed
PMID:7957210   PMID:8205619   PMID:8785301   PMID:10747195   PMID:10850966   PMID:11735257   PMID:12093807   PMID:12501194   PMID:12840750   PMID:15542288   PMID:17293397   PMID:18092822  
PMID:18978355   PMID:20161772   PMID:21539814   PMID:22364878   PMID:22811351   PMID:23417789   PMID:23425245   PMID:23896515   PMID:25771144   PMID:26853943   PMID:26944554   PMID:28864299  
PMID:29642034   PMID:35352799  


Genomics

Comparative Map Data
Tnnc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,408,607 - 6,412,070 (+)NCBIGRCr8
mRatBN7.2166,400,801 - 6,405,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,402,171 - 6,405,634 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,414,415 - 6,417,445 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,559,640 - 7,562,670 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,421,423 - 6,424,453 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,292,207 - 7,295,238 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,292,096 - 7,295,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,220,777 - 7,223,730 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,639,357 - 6,642,331 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,639,312 - 6,642,502 (+)NCBI
Celera168,783,769 - 8,786,737 (-)NCBICelera
Cytogenetic Map16p16NCBI
TNNC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38352,451,100 - 52,454,041 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl352,451,100 - 52,454,041 (-)EnsemblGRCh38hg38GRCh38
GRCh37352,485,116 - 52,488,057 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,460,158 - 52,463,098 (-)NCBINCBI36Build 36hg18NCBI36
Build 34352,460,157 - 52,463,098NCBI
Celera352,464,352 - 52,467,302 (-)NCBICelera
Cytogenetic Map3p21.1NCBI
HuRef352,547,765 - 52,550,715 (-)NCBIHuRef
CHM1_1352,437,484 - 52,440,434 (-)NCBICHM1_1
T2T-CHM13v2.0352,484,001 - 52,486,942 (-)NCBIT2T-CHM13v2.0
Tnnc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391430,930,274 - 30,933,671 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1430,930,269 - 30,933,686 (+)EnsemblGRCm39 Ensembl
GRCm381431,208,312 - 31,211,729 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,208,312 - 31,211,729 (+)EnsemblGRCm38mm10GRCm38
MGSCv371432,021,498 - 32,024,897 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361430,037,321 - 30,040,720 (+)NCBIMGSCv36mm8
Celera1427,466,935 - 27,470,320 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.09NCBI
Tnnc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554302,434,874 - 2,441,596 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554302,438,644 - 2,441,596 (-)NCBIChiLan1.0ChiLan1.0
TNNC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2252,446,169 - 52,449,158 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1352,450,941 - 52,453,930 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0352,393,106 - 52,396,076 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1353,621,749 - 53,624,726 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl353,621,749 - 53,624,726 (-)Ensemblpanpan1.1panPan2
TNNC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12037,313,983 - 37,317,288 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2037,311,966 - 37,317,321 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2037,295,437 - 37,298,748 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02037,664,003 - 37,667,314 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2037,664,083 - 37,667,311 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12037,027,955 - 37,031,266 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02037,436,607 - 37,439,918 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02037,721,202 - 37,724,515 (+)NCBIUU_Cfam_GSD_1.0
Tnnc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118170,152,389 - 170,155,387 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364733,290,913 - 3,294,132 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364733,290,961 - 3,293,920 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNNC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1334,591,386 - 34,594,337 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11334,591,571 - 34,594,320 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21337,805,313 - 37,808,062 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNNC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12213,816,603 - 13,819,572 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2213,816,222 - 13,819,518 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041153,080,316 - 153,083,290 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnnc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248224,764,742 - 4,770,293 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248224,763,285 - 4,767,810 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tnnc1
31 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:136
Count of miRNA genes:92
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000025606
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat

Markers in Region
AI874626  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,404,988 - 6,405,105 (+)MAPPERmRatBN7.2
Rnor_6.0167,294,987 - 7,295,103NCBIRnor6.0
Rnor_5.0167,223,479 - 7,223,595UniSTSRnor5.0
RGSC_v3.4166,642,080 - 6,642,196UniSTSRGSC3.4
Celera168,783,905 - 8,784,021UniSTS
Cytogenetic Map16p16UniSTS
BI289970  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,401,676 - 6,401,835 (+)MAPPERmRatBN7.2
Rnor_6.0167,291,675 - 7,291,833NCBIRnor6.0
Rnor_5.0167,220,245 - 7,220,403UniSTSRnor5.0
RGSC_v3.4166,638,825 - 6,638,983UniSTSRGSC3.4
Celera168,787,111 - 8,787,269UniSTS
RH 3.4 Map1649.0UniSTS
Cytogenetic Map16p16UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000025606   ⟹   ENSRNOP00000025606
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,402,593 - 6,405,634 (+)Ensembl
Rnor_6.0 Ensembl167,292,096 - 7,295,465 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000094646   ⟹   ENSRNOP00000086929
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,402,171 - 6,405,413 (+)Ensembl
RefSeq Acc Id: NM_001034105   ⟹   NP_001029277
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8166,408,607 - 6,412,070 (+)NCBI
mRatBN7.2166,402,171 - 6,405,634 (+)NCBI
Rnor_6.0167,292,207 - 7,295,238 (+)NCBI
Rnor_5.0167,220,777 - 7,223,730 (+)NCBI
RGSC_v3.4166,639,357 - 6,642,331 (+)RGD
Celera168,783,769 - 8,786,737 (-)RGD
Sequence:
RefSeq Acc Id: XM_039094265   ⟹   XP_038950193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8166,409,155 - 6,411,854 (+)NCBI
mRatBN7.2166,402,719 - 6,405,419 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001029277 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950193 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAY59902 (Get FASTA)   NCBI Sequence Viewer  
  EDL88960 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025606.6
  ENSRNOP00000086929.1
RefSeq Acc Id: NP_001029277   ⟸   NM_001034105
- UniProtKB: Q4PP99 (UniProtKB/TrEMBL),   E9PTA1 (UniProtKB/TrEMBL),   A0A8I6A4Q5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000025606   ⟸   ENSRNOT00000025606
RefSeq Acc Id: XP_038950193   ⟸   XM_039094265
- Peptide Label: isoform X1
- UniProtKB: A0A8J8XJV6 (UniProtKB/TrEMBL),   A0A8I6A4Q5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000086929   ⟸   ENSRNOT00000094646
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4PP99-F1-model_v2 AlphaFold Q4PP99 1-161 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699928
Promoter ID:EPDNEW_R10450
Type:single initiation site
Name:Tnnc1_1
Description:troponin C1, slow skeletal and cardiac type
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0167,292,169 - 7,292,229EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309921 AgrOrtholog
BioCyc Gene G2FUF-12157 BioCyc
Ensembl Genes ENSRNOG00000018943 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025606.7 UniProtKB/TrEMBL
  ENSRNOT00000094646.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro Ca-Reg_Muscle_Contr_Cell_Proc UniProtKB/TrEMBL
  EF-hand-like_dom UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_Ca-bd UniProtKB/TrEMBL
KEGG Report rno:290561 UniProtKB/TrEMBL
NCBI Gene 290561 ENTREZGENE
PANTHER MYOSIN LIGHT CHAIN 1, 3 UniProtKB/TrEMBL
  TROPONIN C1, SLOW SKELETAL AND CARDIAC TYPE UniProtKB/TrEMBL
Pfam EF-hand_8 UniProtKB/TrEMBL
  EF_hand_5 UniProtKB/TrEMBL
PhenoGen Tnnc1 PhenoGen
PRINTS RECOVERIN UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018943 RatGTEx
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A8I6A4Q5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8J8XJV6 ENTREZGENE, UniProtKB/TrEMBL
  A6KG03_RAT UniProtKB/TrEMBL
  E9PTA1 ENTREZGENE
  Q4PP99 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary E9PTA1 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Tnnc1  troponin C1, slow skeletal and cardiac type  Tnnc1  troponin C type 1 (slow)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-23 Tnnc1  troponin C type 1 (slow)  Tnnc1  troponin C, cardiac/slow skeletal  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Tnnc1  troponin C type 1 (slow)  Tncc  troponin C, cardiac/slow skeletal  Symbol and Name updated 1299863 APPROVED
2005-12-06 Tncc  troponin C, cardiac/slow skeletal  Tncc_predicted  troponin C, cardiac/slow skeletal (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Tncc_predicted  troponin C, cardiac/slow skeletal (predicted)      Symbol and Name status set to approved 70820 APPROVED